[chimerax-users] Adding H atoms

[Daniel VillanuevaAvalos]

Thank you. I simply will not display hydrogen atoms in my animation.
One thing that I am trying to do but cannot figure out how to do is to save
all the chains as separate pdb files. I am looking into the command:save
documentation but cannot find if it is possible.

Thank you,
Daniel.

El lun, 25 jul 2022 a la(s) 17:56, Elaine Meng (meng at cgl.ucsf.edu) escribió:

> Hello Daniel,
> No idea why Houdini (a program I have never used) would or would not show
> atoms .  We haven't had problems with saved PDB files after adding
> hydrogens, and ChimeraX PDB saving is careful about using the correct
> format.  If you are saving using the dialog opened from the menu with
> File... Save, just make sure you specified the correct file type to save
> (PDB) and did NOT turn on any options to save the displayed or selected
> atoms only.  As you might expect, those options would only save the atoms
> that are displayed or selected instead of all atoms.
> I hope this helps,
> Elaine
> -----
> Elaine C. Meng, Ph.D.
> UCSF Chimera(X) team
> Department of Pharmaceutical Chemistry
> University of California, San Francisco
>
> > On Jul 25, 2022, at 4:47 PM, Daniel VillanuevaAvalos via ChimeraX-users <
> chimerax-users at cgl.ucsf.edu> wrote:
> >
> > Hello,
> > I am adding hydrogen atoms by entering addh#1 to the command line, and
> it works but when I export the pdb and import it into houdini, things are
> messed up. Sometimes it just doesn't show up and other times, just part of
> the structure shows up. Am I missing something?
> >
> > Thank you,
> > Daniel.
>
>
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